@article{PAR00010730,
  title = {{N}ext generation sequencing of viral {RNA} genomes},
  author = {{M}arston, {D}. {A}. and {M}c{E}lhinney, {L}. {M}. and {E}llis, {R}. {J}. and {H}orton, {D}. {L}. and {W}ise, {E}. {L}. and {L}eech, {S}. {L}. and {D}avid, {D}. and {L}amballerie, {X}avier de and {F}ooks, {A}. {R}.},
  editor = {},
  language = {{ENG}},
  abstract = {{B}ackground: {W}ith the advent of {N}ext {G}eneration {S}equencing ({NGS}) technologies, the ability to generate large amounts of sequence data has revolutionized the genomics field. {M}ost {RNA} viruses have relatively small genomes in comparison to other organisms and as such, would appear to be an obvious success story for the use of {NGS} technologies. {H}owever, due to the relatively low abundance of viral {RNA} in relation to host {RNA}, {RNA} viruses have proved relatively difficult to sequence using {NGS} technologies. {H}ere we detail a simple, robust methodology, without the use of ultra-centrifugation, filtration or viral enrichment protocols, to prepare {RNA} from diagnostic clinical tissue samples, cell monolayers and tissue culture supernatant, for subsequent sequencing on the {R}oche 454 platform. {R}esults: {A}s representative {RNA} viruses, full genome sequence was successfully obtained from known lyssaviruses belonging to recognized species and a novel lyssavirus species using these protocols and assembling the reads using de novo algorithms. {F}urthermore, genome sequences were generated from considerably less than 200 ng {RNA}, indicating that manufacturers' minimum template guidance is conservative. {I}n addition to obtaining genome consensus sequence, a high proportion of {SNP}s ({S}ingle {N}ucleotide {P}olymorphisms) were identified in the majority of samples analyzed. {C}onclusions: {T}he approaches reported clearly facilitate successful full genome lyssavirus sequencing and can be universally applied to discovering and obtaining consensus genome sequences of {RNA} viruses from a variety of sources.},
  keywords = {{N}ext generation sequencing ; {P}yrosequencing ; {L}yssavirus ; {G}enome ; {RNA} ; {V}irus},
  booktitle = {},
  journal = {{B}mc {G}enomics},
  volume = {14},
  numero = {},
  pages = {444},
  ISSN = {1471-2164},
  year = {2013},
  DOI = {10.1186/1471-2164-14-444},
  URL = {https://www.documentation.ird.fr/hor/{PAR}00010730},
}